Programs aren't working correctly, don't know where to post this.

I am running a legitimate copy of Windows 8.
After I rebooted my laptop 3 days ago, when I open a program, it would take 3-5 minutes to load or it loads right away and once I click on the program it freezes and stops responding.
I have already ran virus scans, used CCleaner, AdwCleaner, MalwareBytes StartUpLite, ran hardware diagnostics and nothing works.
I ran my computer in safemode and all my programs came up and loaded fast.
By loaded I mean to be able to visually see it(GUI).
When I open something it'll be active in task manager but take forever to show up on my desktop.
This has been happening for 3 days, please help.